Remotely programmable matrices with memories

• US 6,331,273 B1
• Filed: 06/07/1995
• Issued: 12/18/2001
• Est. Priority Date: 04/25/1995
• Status: Expired due to Fees

• Current Assignee: Irori Technologies Incorporated
• Original Assignee: Discovery Partners International, Inc. (Infinity Pharmaceuticals, Inc.)
• Inventors: David, Gary S., Nova, Michael P., Senyei, Andrew E.
• Primary Examiner(s): Zitomer, Stephanie W.
• Application Number:
  US08/473,660
• Time in Patent Office: 2,386 Days
• Field of Search: 422/68.1, 422/50, 422/57, 422/58, 422/82.05, 422/99, 422/102, 422/104, 435/6, 435/7--, 435/91.1, 435/5, 436/161, 436/501, 436/182, 436/183, 436/518, 436/578, 436/523-528, 365/163, 536/24-- 3, 530/333, 530/334, 530/388.1, 364/496-499, 257/225, 257/390, 395/430, 488/131
• US Class Current: 506/4
• CPC Class Codes: B01J 19/0046 Sequential or parallel reactions, e.g. for the synthesis of polypeptides or polynucleotides; Apparatus and devices for combinatorial chemistry or for making molecular arrays synthesis methods per se C40B50/00
• CPC Class Codes: B01J 2219/00295 the reactor vessels having pervious side walls
• CPC Class Codes: B01J 2219/00299 Generally cylindrical reactor vessels
• CPC Class Codes: B01J 2219/00308 interchangeably mounted in racks or blocks
• CPC Class Codes: B01J 2219/00344 Caps
• CPC Class Codes: B01J 2219/00461 Beads and reaction vessel together
• CPC Class Codes: B01J 2219/00463 Directed sorting
• CPC Class Codes: B01J 2219/005 Beads
• CPC Class Codes: B01J 2219/00502 Particles of irregular geometry
• CPC Class Codes: B01J 2219/0054 Means for coding or tagging the apparatus or the reagents
• CPC Class Codes: B01J 2219/00542 Alphanumeric characters
• CPC Class Codes: B01J 2219/00549 2-dimensional
• CPC Class Codes: B01J 2219/00551 3-dimensional
• CPC Class Codes: B01J 2219/0056 Raised or sunken areas
• CPC Class Codes: B01J 2219/00567 Transponder chips
• CPC Class Codes: B01J 2219/00569 EEPROM memory devices
• CPC Class Codes: B01J 2219/00585 Parallel processes
• CPC Class Codes: B01J 2219/0059 Sequential processes
• CPC Class Codes: B01J 2219/00592 Split-and-pool, mix-and-divide processes
• CPC Class Codes: B01J 2219/00596 Solid-phase processes
• CPC Class Codes: B01J 2219/00689 : using computers
• CPC Class Codes: B01J 2219/00695 : Synthesis control routines, e.g. using computer programs
• CPC Class Codes: B01J 2219/0072 : Organic compounds
• CPC Class Codes: B01J 2219/00722 : Nucleotides
• CPC Class Codes: B01J 2219/00725 : Peptides
• CPC Class Codes: B82Y 10/00 : Nanotechnology for information processing, storage or transmission, e.g. quantum computing or single electron logic
• CPC Class Codes: C07K 1/00 : General methods for the preparation of peptides , i.e. processes for the organic chemical preparation of peptides or proteins of any length
• CPC Class Codes: C07K 1/04 : on carriers C07K1/003, C07K1/006 take precedence
• CPC Class Codes: C07K 1/047 : Simultaneous synthesis of different peptide species; Peptide libraries
• CPC Class Codes: C40B 40/06 : Libraries containing nucleotides or polynucleotides, or derivatives thereof
• CPC Class Codes: C40B 40/10 : Libraries containing peptides or polypeptides, or derivatives thereof
• CPC Class Codes: C40B 60/14 : for creating libraries
• CPC Class Codes: C40B 70/00 : Tags or labels specially adapted for combinatorial chemistry or libraries, e.g. fluorescent tags or bar codes
• CPC Class Codes: G01N 15/149 : specially adapted for sorting particles, e.g. by their size or optical properties
• CPC Class Codes: G01N 2035/00782 : reprogrammmable code
• CPC Class Codes: G01N 35/00732 : Identification of carriers, materials or components in automatic analysers
• CPC Class Codes: G01N 35/00871 : Communications between instruments or with remote terminals
• CPC Class Codes: G11C 13/0014 : comprising cells based on organic memory material
• CPC Class Codes: G11C 13/0019 : comprising bio-molecules
• CPC Class Codes: G11C 13/025 : using fullerenes, e.g. C60, or nanotubes, e.g. carbon or silicon nanotubes

Abstract

Combinations, called matrices with memories, of matrix materials with remotely addressable or remotely programmable recording devices that contain at least one data storage unit are provided. The matrix materials are those that are used in as supports in solid phase chemical and biochemical syntheses, immunoassays and hybridization reactions. The data storage units are preferably non-volatile antifuse memories. By virtue of this combination, molecules and biological particles, such as phage and viral particles and cells, that are in proximity or in physical contact with the matrix combination can be labeled by programming the memory with identifying information and can be identified by retrieving the stored information. Combinations of matrix materials, memories, and linked molecules and biological materials are also provided. The combinations have a multiplicity of applications, including combinatorial chemistry, isolation and purification of target macromolecules, capture and detection of macromolecules for analytical purposes, selective removal of contaminants, enzymatic catalysis, chemical modification and other uses. Methods for electronically tagging molecules are biological particles and matrix support materials and immunoassays and and other methods are also provided.

Claims

1. A method for electromagnetically tagging molecules or biological particles, comprising contacting the molecules or biological particles with a combination of a matrix with memory, wherein:

the combination of a matrix with memory comprises;

(A) a remotely addressable recording device, comprising a data storage unit; and

(B) a matrix material, wherein;

the matrix material is in the form of a container used for chemical syntheses that has a volume of about 100 ml or less;

the recording device is in contact with the matrix or in a solution that is in contact with the matrix; and

the contacting is effected by placing the molecules or biological particles in proximity to the combination or by placing the combination in physical contact with the molecules or biological particles.

16. The method of claim 1, wherein the container has a volume of 10 ml or less.

17. The method of claim 1, wherein the container is a microtiter plate, a vial or a test tube, a column used in chromatographic separations and purifications or a vessel used for peptide or oligonucleotides syntheses.

18. The method of claim 1, wherein the container is a column used in chromatographic separations and purifications or a vessel used for peptide or oligonucleotides syntheses.

19. The method of claim 1, wherein the device is less than about 10 mm³ in size.

2. A method for electromagnetically tagging molecules or biological particles, comprising:

contacting the molecules or biological particles with a recording device, comprising an antifuse memory means for storing a plurality of data points and means for receiving a transmitted electromagnetic signal so that a write signal causes a stored data point corresponding to the data signal to be stored within the memory means; and

transmitting an electromagnetic signal to the device, whereby a data point is stored within the memory means.

3. The method of claim 2, wherein the process of contacting and transmitting of a data point is repeated a plurality of times with additional molecules or biological particles and recording devices to produce a plurality of electronically tagged molecules or biological particles.

4. The method of claim 2, wherein the process is automated.

5. A method for electromagnetically tagging a support matrix, comprising contacting the matrix with a recording device, wherein:

the contact may be direct or may be effected indirectly;

the recording device includes a non-volatile memory means for storing a plurality of data points and means for receiving a transmitted electromagnetic signal so that a write signal causes a stored data point corresponding to the data signal to be stored within the non-volatile memory means;

and the non-volatile memory means comprises an antifuse.

6. A method for electromagnetically tagging a support matrix, comprising contacting the matrix with a recording device, wherein:

the recording device, comprises a memory device having an optical recording medium for storing a plurality of data points and means for receiving a projected optical signal having a first intensity for forming a plurality of spectral holes in the optical recording medium, wherein each spectral hole of the plurality of spectral holes corresponds to a stored data point.

7. The method of claim 6, wherein the projected optical signal comprises a second intensity for reading the stored data point by detecting the presence of each spectral hole in the optical recording medium.

8. A method for identifying or tracking molecules and biological particles, comprising:

(a) providing at least one recording device that is linked to, in contact with, or in proximity to, a molecule or biological particle;

(b) programming the recording device with

(i) one or more indicators representative of the identity of the molecule or biological particle, and/or

(ii) one or more indicators representative of physical or chemical properties of the molecule or biological particle;

wherein the recording device comprises an antifuse, or the recording device comprises an optical recording medium;

(c) retrieving the at least one recording device and linked, contacted or proximate molecule or biological particle and reading stored information, thereby determining the identity of and tracking the molecule or biological particle linked, contacted or proximate to the recording device.

9. The method of claim 8, further comprising:

exposing the recording device to electromagnetic radiation; and

transmitting to a host computer or decoder/encoder instrument the indicator(s) representative of the identity of the molecule or biological particle, or physical or chemical properties of the molecule or biological particle, or other identifying information for tracking the molecule or biological particle.

10. An array, comprising a substantially continuous sheet and a plurality of combinations of a matrix with memory wherein:

each combination of a matrix with memory comprises;

(A) matrix material; and

(B) a recording device that is coated on at least one side with matrix material and that comprises a data storage unit, wherein;

the matrix material is either comprised of particles of a size such that at least one dimension is no more than 100 mm or the matrix material is in the form of a container used for chemical syntheses;

the matrix material is fabricated from material that can be used as a support matrix in chemical syntheses and reactions;

each recording device includes a data storage unit with remotely programmable or readable memory capable of storage of multiple bits of data; and

each device is programmed with data identifying the relative position of each combination in the array.

11. The array of claim 10, wherein the device is less than about 10 mm³ in size.

12. The array of claim 10, wherein each combination is contiguous to the adjacent combination, whereby a continuous matrix surface is formed.

13. The array of claim 10, wherein the matrix comprises nitrocellulose.

14. In a Southern, Northern, Western or dot blot assay, the improvement comprising, linking the blot to a plurality of data storage devices, wherein the relative position in the blot of each data storage device is programmed into the data storage device.

15. The assay of claim 14, wherein:

the blot is comprised of an array containing a plurality of combinations of a matrix with memory;

the combination of a matrix with memory, comprises;

(A) a recording device, comprising an electromagnetically remotely programmable data storage unit; and

(B) a matrix material coating at least one side of the device; and

the array contains a contiguous arrangement of the combinations, whereby a continuous blotting surface is formed.